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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactattttaatgtgtagatttagcttctctaatgttgattcggtcaatttaggttttaattggatgtgggctttgttttcggctacatccaattgaactcggcctgatctgacttctcctcttttttttgttctctgatattaattatgatttattttctgcaaaagGGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGGAACACATTCCTACCCCCACCTAAAGGTGAGAAAATTGAGAAAAGTGCTA

Basic information

species Glycine max
transcript GLYMA03G35170.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G35170.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G015344_T02 (Zea mays), 3'ss of exon 3
gtaactattttaatgtgtagatttagcttctctaatgttgattcggtcaatttaggttttaattggatgtgggctttgttttcggctacatccaattgaactcggcctgatctgacttctcctcttttttttgttctctgatattaattat-gatttattttctgcaaaagGGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGGAACACATTCCTACCCCCACCTAAAGGTGAGAAAATTGAGAAAAGTGCTA
                                                                  ||     || ||||    |||   | |  ||    || |    ||||        ||   |||   ||    |||  | ||| || |||   || | | ||  |||| |||||||| |||||||||||||| ||||||||   ||||||  | |||||    || || ||  ||||    | | ||||  ||||| |||||||| 
----------------------------------------------------------------taata-atactatgttacttgctcagtactttta---tctgtagaatctacaaaacactgcattt---gtctaatgaactgaatgatcgatactttgtgttcattagGGAGGAAAGCCCCGTGTTGCTGATTTCGTTCATGGGTCAGATGGCATTGGGAATCTGTTTCTTCCTGCACCCTCTGCTAAGAAGGTTGAGGAAAGTGCTG

upper sequence: GLYMA03G35170.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G085960_T01 (Zea mays), 3'ss of exon 3
gtaactattttaatgtgtagatttagcttctctaatgttgattcggtcaatttaggttttaattggatgtgggctttgttttcggctacatccaattgaactcggcctgatctgacttctcctcttttttttgttctctgatattaattat-gatttattttctgcaaaagGGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGGAACACATTCCTACCCCCACCTAAAGGTGAGAAAATTGAGAAAAGTGCTA
                                                                        | |   |  || |  |  |       ||  | |  |||    || |  |      ||| |  |   |||  | ||| || |||   || | | ||  |||| |||||||| ||| |||||||||||||||||||   ||||||  | |||||    || || ||  ||||    | | ||||  ||||| |||||||| 
----------------------------------------------------------------------atgttacctgctcagtaattttatcgataatacagtttgaatccacatagcactgcatttgt-ctggatgaactgaatgatcgatactttgtgttcattagGGAGGAAAGCCCCGTATTGCTGATTTTGTTCATGGGTCAGATGGCATTGGGAATCTGTTTCTTCCTGCACCCTCTGCTAAGAAGGTTGAGGAAAGTGCTG

upper sequence: GLYMA03G35170.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G36310.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaactattttaatgtgtagatttagcttctctaatgttgattcggtcaatttaggttttaattggatgtgggctttgttttcggctac-atccaattgaactcggcctgatctgacttctcctcttttttttgttctctgatattaattatgatttattttctgcaaaagGGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGGAACACATTCCTACCCCCACCTAAAGGTGAGAAAATTGAGAAAAGTGCTA
             |    |  |||  || |||| ||   ||||  |  | ||||| || |     || |     |  | | |  ||||  |  |||   ||  |   | | | ||||||   ||    || | | | |    | || |||                   |||||||||  || ||||||||||||||||| ||||||||| | ||||||||  |    |  || || || || |   |  |||||  ||||||||||||  
------------gtac-catctttctctcctctcataaggatt--gaaactttagtttatgccatgaagatttttcagatctttgctatgagacaa--aaagccaaaccgttgtgactttagcttgaattctggctttggtgtgttgattc------------------agGGTGGAATTCCGCGTGTTGCTGATTTTGTGCATGGTAAAAACGGACTAGGAGATGTCTCTCTTCCTCCTCCGAGTAGAAAGAAATCTGAGAAAAGTGCAG

upper sequence: GLYMA03G35170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g03690.t01 (Vitis vinifera), 3'ss of exon 3
gtaactattttaatgtgtagatttagcttctctaatgttgattcggtcaatttaggttttaattggatgtgggctttgttttcggctacatccaattgaactcggcctgatctgacttctcctcttttttttgttctctgatattaattatgatttattttctgcaaaagGGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGGAACACATTCCTACCCCCACCTAAAGGTGAGAAAATTGAGAAAAGTGCTA
                                                               |  |  ||     |  |    | | | |     | ||||    |   | |   |||   | |||||    | ||       ||| |||  ||    |  || |  |||| ||| |||||||||||||||| ||| ||||||||   |||||||| || |||| |||  |||||| ||| |||| | ||||||| ||||| | |||  
---------------------------------------------------------------tccacatgaatcattgtccttgttgccttg---tcaactgacaccacttttggttcaggtttttttgacttactgcagc-ctaactatccttg---tgttggatcagGGGGGAGAGCCTCGTGTTGCTGACTTTATTCATGGTTCTGATGGACTGGGAAACATATTTTTACCCCAACCAAAAGCTAAGAAAATCGAGAAGAATGCAG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|4396617|gb|AI495614.1|AI495614
EST:     CAGGCCGTGAAGATATTCCAGTTGCACAGGGAAGCCATGAGCCATTGAAG                         GGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGG
genomic: CAGGCCGTGAAGATATTCCAGTTGCACAGGGAAGCCATGAGCCATTGAAGgtaactattt ... tctgcaaaagGGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctcctcttttttttgttctctgatattaattatgatttattttctgcaaaagGGTGGAAAGCCTCGTGTTGCTGATTTTGTTCATGGTAAAGATGGACTAGGGAACACATTCCTACCCCCACCTAAAGGTGAGAAAATTGAGAAAAGTGCTA
                          tattaat  putative branch site (score: 2)
                                      tttattttct  putative PPT
         ttttttttgttctctg  TA-rich tract